Exploring the Prevalence and Distribution Patterns of Antibiotic Resistance Genes in Bovine Gut Microbiota Using a Metagenomic Approach

Abstract The drug resistance has been partly driven by the overuse of antimicrobials in agricultural feeding. Better understanding of the antibiotic resistance in gut of bovine is needed to assess its potential effects based on metagenomic approach and analysis. In this study, we collected 40 fecal samples to explore the drug resistance deriving from antibiotics in bacterial community by an analysis of the diversity and difference of antibiotic resistant genes (ARGs) in gut microbiota from yak, beef and dairy cattle. 1688 genes were annotated, including 734 ARG subtypes in summary. The ARGs were related with tetracycline, quinolone, β-lactam, aminoglycoside, in accordance with the antibiotics widely used in clinic for humans or animals. The emergence, prevalence and differences in resistance genes in the intestines of yaks, beef and dairy cattle may be caused by the selective pressure of different feeding patterns. Additionally, the abundance of ARGs in yak was lower than in beef and dairy cattle, while the abundance of integron, a kind of mobile genetic elements (MGEs), was higher than those in beef and dairy cattle. Furthermore, the results of this study demonstrated that a comprehensive profile of various ARGs among yak, beef and dairy cattle for providing a basic research.

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Exploring the prevalence and distribution patterns of antibiotic resistance genes in bovine gut microbiota using a metagenomic approach

10.21203/rs.2.23188/v1 ◽

2020 ◽

Author(s):

Zhen Zhu ◽

Mingze Cao ◽

Weiwei Wang ◽

Liwei Zhang ◽

Tenghe Ma ◽

...

Keyword(s):

Antibiotic Resistance ◽

Gut Microbiota ◽

Beef Cattle ◽

Resistance Genes ◽

Antibiotic Resistance Genes ◽

Distribution Patterns ◽

Antibiotic Consumption ◽

Metagenomic Sequencing ◽

Sequencing Data ◽

Illumina Hiseq

Abstract Background: Antibiotic resistance genes (ARGs) have become recognized contaminants and pose a high public health risk. The animal gut microbiota is a reservoir of ARGs, but the knowledge of the origin and dissemination of ARGs remains unclear.Methods: 30 of the fecal samples were obtained from bovine and were immediately frozen in liquid nitrogen. Total metagenomic DNA was extracted by cetyltrimethylammonium bromide (CTAB) method and sequenced by Illumina HiSeq X Ten platform. After quality control and assembled, the sequence were annotated by NR, CARD and ISfinder. Statistical analysis was performed using SPSS 19.0.Results: A total of 42 ARG types were detected by annotating the metagenomic sequencing data from the Comprehensive Antibiotic Resistance Database (CARD). We found that the diversity and abundance of ARGs in individual yaks were significantly lower than those in dairy and beef cattle. The results of heat map and single-nucleotide polymorphism (SNP) clustering suggest that ARGs from dairy and beef cattle are more similar, while those from yaks cluster separately. Conclusion: The long-term use of antibiotics may contribute to this difference, suggesting that antibiotic consumption is the main cause of ARG prevalence. Furthermore, abundant insertions and integrations were also found in this study, signifying a strong potential for horizontal transfer of ARGs among microbes, especially pathogens.

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Exploring the differences of antibiotic resistance genes profiles between river surface water and sediments using metagenomic approach

Ecotoxicology and Environmental Safety ◽

10.1016/j.ecoenv.2018.05.044 ◽

2018 ◽

Vol 161 ◽

pp. 64-69 ◽

Cited By ~ 11

Author(s):

Haoyu Jiang ◽

Renjun Zhou ◽

Mengdi Zhang ◽

Zhineng Cheng ◽

Jun Li ◽

...

Keyword(s):

Antibiotic Resistance ◽

Surface Water ◽

Resistance Genes ◽

Antibiotic Resistance Genes ◽

Metagenomic Approach

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Distribution patterns of antibiotic resistance genes and their bacterial hosts in pig farm wastewater treatment systems and soil fertilized with pig manure

The Science of The Total Environment ◽

10.1016/j.scitotenv.2020.143654 ◽

2021 ◽

Vol 758 ◽

pp. 143654

Author(s):

Rong-Min Zhang ◽

Xiao Liu ◽

Shao-Lin Wang ◽

Liang-Xing Fang ◽

Jian Sun ◽

...

Keyword(s):

Antibiotic Resistance ◽

Wastewater Treatment ◽

Resistance Genes ◽

Antibiotic Resistance Genes ◽

Distribution Patterns ◽

Pig Manure ◽

Pig Farm ◽

Wastewater Treatment Systems ◽

Farm Wastewater

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Metagenomic profiles and antibiotic resistance genes in gut microbiota of mice exposed to arsenic and iron

Chemosphere ◽

10.1016/j.chemosphere.2014.03.068 ◽

2014 ◽

Vol 112 ◽

pp. 1-8 ◽

Cited By ~ 42

Author(s):

Xuechao Guo ◽

Su Liu ◽

Zhu Wang ◽

Xu-xiang Zhang ◽

Mei Li ◽

...

Keyword(s):

Antibiotic Resistance ◽

Gut Microbiota ◽

Resistance Genes ◽

Antibiotic Resistance Genes

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Dynamic changes in Antibiotic Resistance Genes and Gut Microbiota after H. Pylori Eradication Therapies

10.21203/rs.3.rs-777700/v1 ◽

2021 ◽

Author(s):

LINGLING WANG ◽

Haobin Yao ◽

Tereasa Tong ◽

KS Lau ◽

Suet Yi Leung ◽

...

Keyword(s):

Antibiotic Resistance ◽

Gut Microbiota ◽

Resistance Genes ◽

Eradication Therapy ◽

Antibiotic Resistance Genes ◽

Short Term ◽

Significant Difference ◽

Treatment Naïve ◽

Stool Samples ◽

H Pylori

Abstract Background: Short-term antibiotics exposure is associated with alterations in microbiota and antibiotic resistance genes (ARGs) in the human gut. While antibiotics are critical in the successful eradication of Helicobacter pylori, the short-term and long-term impacts on the composition and quantity of antibiotics resistance genes after H. pylori eradication is unclear. This study used whole genome shotgun metagenomic of stool samples to characterize the gut microbiota and ARGs, before and after H. pylori eradication therapy. Results: Forty-four H. pylori-infected patients were recruited including 21 treatment naïve patients who received clarithromycin-based triple therapy (CLA group) and 23 patients who failed previous therapies, in which 10 received levofloxacin-based quadruple therapy [LEVO group] and 13 received other combinations [OTHER group] in the current study. Stool samples were collected at baseline (before current treatment), 6-week and 6-month after eradication therapy. At baseline, there was only a slight difference among the three groups on ARGs and gut microbiota. After eradication therapy, there was a transient but significant increase in gut ARGs 6-week post-therapy, among which the LEVO group had the most significant ARGs alteration compared to other two groups. For treatment naïve patients, those with higher ARG richness and ErmF abundance were prone to fail CLA eradication. For gut microbiota, the bacteria richness decreased at 6-week and there was a significant difference in microbiota community among the three groups at 6-week. Conclusions: Our findings demonstrated the dynamic alterations in gut microbiota and ARGs induced by different eradication therapies, which could influence the choices of antibiotics in eradication therapy.

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